Acknowledgement
Supported by : National Institute of Animal Science
References
- Adams, M.D., Kelley, J.M., Gocayne, J.D., Dubnick, M., Polymeropoulos, M.H., Xiao, H., Merril, C.R., Wu, A., Olde, B., Moreno, R.F., et al. (1991). Complementary DNA sequencing: expressed sequence tags and human genome project. Science 252, 1651-1656 https://doi.org/10.1126/science.2047873
- Altschul, S.F., Madden, T.L., Schaffer, A.A., Zhang, J., Zhang, Z., Miller, W., and Lipman, D.J. (1997). Gapped BLAST and PSIBLAST: a new generation of protein database search programs. Nucleic Acids Res. 25, 3389-3402 https://doi.org/10.1093/nar/25.17.3389
- Ashburner, M., Ball, C.A., Blake, J.A., Botstein, D., Butler, H., Cherry, J.M., Davis, A.P., Dolinski, K., Dwight, S.S., Eppig, J.T., et al. (2000). Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat. Genet. 25, 25-29 https://doi.org/10.1038/75556
- Audic, S., and Claverie, J.M. (1997). The significance of digital gene expression profiles. Genome Res. 7, 986-995 https://doi.org/10.1101/gr.7.10.986
- Ballard, F.J., Hanson, R.W., and Kronfeld, D.S. (1969). Gluconeogenesis and lipogenesis in tissue from ruminant and nonruminant animals. Fed. Proc. 28, 218-231
- Bateman, A., Coin, L., Durbin, R., Finn, R.D., Hollich, V., Griffiths- Jones, S., Khanna, A., Marshall, M., Moxon, S., Sonnhammer, E.L., et al. (2004). The Pfam protein families database. Nucleic Acids Res. 32, D138-141
- Bluher, M., Wilson-Fritch, L., Leszyk, J., Laustsen, P.G., Corvera, S., and Kahn, C.R. (2004). Role of insulin action and cell size on protein expression patterns in adipocytes. J. Biol. Chem. 279, 31902-31909 https://doi.org/10.1074/jbc.M404570200
- Bonferroni, C.E. (1937). Teoria statistica delle classi e calcolo delle probabilit?, Pubblicazioni del R Istituto Superiore di Scienze Economiche e Commerciali di Firenze 8, 3-62
- Bose, A., Guilherme, A., Robida, S.I., Nicoloro, S.M., Zhou, Q.L., Jiang, Z.Y., Pomerleau, D.P., and Czech, M.P. (2002). Glucose transporter recycling in response to insulin is facilitated by myosin Myo1c. Nature 420, 821-824 https://doi.org/10.1038/nature01246
- Chen, C.H., Lin, E.C., Cheng, W.T., Sun, H.S., Mersmann, H.J., and Ding, S.T. (2006). Abundantly expressed genes in pig adipose tissue: an expressed sequence tag approach. J. Anim. Sci. 84, 2673-2683 https://doi.org/10.2527/jas.2005-737
- Ewing, B., and Green, P. (1998). Base-calling of automated sequencer traces using phred. II. Error probabilities. Genome Res. 8, 186-194 https://doi.org/10.1101/gr.8.3.186
- Fang, M., Hu, X., Jiang, T., Braunschweig, M., Hu, L., Du, Z., Feng, J., Zhang, Q., Wu, C., and Li, N. (2005). The phylogeny of Chinese indigenous pig breeds inferred from microsatellite markers. Anim. Genet. 36, 7-13 https://doi.org/10.1111/j.1365-2052.2004.01234.x
- Fujisaki, S., Sugiyama, A., Eguchi, T., Watanabe, Y., Hiraiwa, H., Honma, D., Saito, T., and Yasue, H. (2004). Analysis of a fulllength cDNA library constructed from swine olfactory bulb for elucidation of expressed genes and their transcription initiation sites. J. Vet. Med. Sci. 66, 15-23 https://doi.org/10.1292/jvms.66.15
- Gilroy, D.W., Colville-Nash, P.R., Willis, D., Chivers, J., Paul-Clark, M.J., and Willoughby, D.A. (1999). Inducible cyclooxygenase may have anti-inflammatory properties. Nat. Med. 5, 698-701 https://doi.org/10.1038/9550
- Gordon, D., Abajian, C., and Green, P. (1998). Consed: a graphical tool for sequence finishing. Genome Res. 8, 195-202 https://doi.org/10.1101/gr.8.3.195
- Gorodkin, J., Cirera, S., Hedegaard, J., Gilchrist, M.J., Panitz, F., Jorgensen, C., Scheibye-Knudsen, K., Arvin, T., Lumholdt, S., Sawera, M., et al. (2007). Porcine transcriptome analysis based on 97 non-normalized cDNA libraries and assembly of 1,021,891 expressed sequence tags. Genome Biol. 8, R45 https://doi.org/10.1186/gb-2007-8-4-r45
- Hajjar, K.A., and Krishnan, S. (1999). Annexin II: a mediator of the plasmin/plasminogen activator system. Trends Cardiovasc. Med. 9, 128-138 https://doi.org/10.1016/S1050-1738(99)00020-1
- Harris, M.A., Clark, J., Ireland, A., Lomax, J., Ashburner, M., Foulger, R., Eilbeck, K., Lewis, S., Marshall, B., Mungall, C., et al. (2004). The Gene Ontology (GO) database and informatics resource. Nucleic Acids Res. 32, D258-261 https://doi.org/10.1093/nar/gkh036
- Huang, X., and Madan, A. (1999). CAP3: A DNA sequence assembly program. Genome Res. 9, 868-877 https://doi.org/10.1101/gr.9.9.868
- Huff-Lonergan, E., Baas, T.J., Malek, M., Dekkers, J.C., Prusa, K., and Rothschild, M.F. (2002). Correlations among selected pork quality traits. J. Anim. Sci. 80, 617-627 https://doi.org/10.2527/2002.803617x
- Humphray, S.J., Scott, C.E., Clark, R., Marron, B., Bender, C., Camm, N., Davis, J., Jenks, A., Noon, A., Patel, M., et al. (2007). A high utility integrated map of the pig genome. Genome Biol. 8, R139 https://doi.org/10.1186/gb-2007-8-7-r139
- Kato, S., Sekine, S., Oh, S.W., Kim, N.S., Umezawa, Y., Abe, N., Yokoyama-Kobayashi, M., and Aoki, T. (1994). Construction of a human full-length cDNA bank. Gene 150, 243-250 https://doi.org/10.1016/0378-1119(94)90433-2
- Kim, T.H., Kim, N.S., Lim, D., Lee, K.T., Oh, J.H., Park, H.S., Jang, G.W., Kim, H.Y., Jeon, M., Choi, B.H., et al. (2006). Generation and analysis of large-scale expressed sequence tags (ESTs) from a full-length enriched cDNA library of porcine backfat tissue. BMC Genomics 7, 36 https://doi.org/10.1186/1471-2164-7-36
- Kim, H., Park, T.S., Lee, W.K., Moon, S., Kim, J.N., Shin, J.H., Jung, J.G., Lee, S.D., Park, S.H., Park, K.J., et al. (2007). MPSS profiling of embryonic gonad and primordial germ cells in chicken. Physiol. Genomics 29, 253-259 https://doi.org/10.1152/physiolgenomics.00067.2006
- Lee, H.Y., Cui, X.S., Lee, K.A., and Kim, N.H. (2006a). Annealing control primer system identifies differentially expressed genes in blastocyst-stage porcine parthenotes. Zygote 14, 71-80 https://doi.org/10.1017/S0967199406003571
- Lee, M.H., Lee, S.H., Kim, H., Jin, J.B., Kim, D.H., and Hwang, I. (2006b). A WD40 repeat protein, Arabidopsis Sec13 homolog 1, may play a role in vacuolar trafficking by controlling the membrane association of AtDRP2A. Mol. Cells 22, 210-219
- Lunney, J.K. (2007). Advances in swine biomedical model genomics. Int. J. Biol. Sci. 3, 179-184
- Maruyama, K., and Sugano, S. (1994). Oligo-capping: a simple method to replace the cap structure of eukaryotic mRNAs with oligoribonucleotides. Gene 138, 171-174 https://doi.org/10.1016/0378-1119(94)90802-8
- Mikawa, A., Suzuki, H., Suzuki, K., Toki, D., Uenishi, H., Awata, T., and Hamasima, N. (2004). Characterization of 298 ESTs from porcine back fat tissue and their assignment to the SSRH radiation hybrid map. Mamm. Genome 15, 315-322
- Moon, H.S., and Chung, C.S. (2004). Effect of isomers of conjugated linoleic acid on porcine preadipocyte differentiation. J. Anim. Sci. Technol. 46, 967-974 https://doi.org/10.5187/JAST.2004.46.6.967
- Mulder, N.J., Apweiler, R., Attwood, T.K., Bairoch, A., Bateman, A., Binns, D., Bradley, P., Bork, P., Bucher, P., Cerutti, L., et al. (2005). InterPro, progress and status in 2005. Nucleic Acids Res 33, D201-205 https://doi.org/10.1093/nar/gki158
- Nafikov, R.A., and Beitz, D.C. (2007). Carbohydrate and lipid metabolism in farm animals. J. Nutr. 137, 702-705 https://doi.org/10.1093/jn/137.3.702
- Nygard, A.B., Jorgensen, C.B., Cirera, S., and Fredholm, M. (2007). Selection of reference genes for gene expression studies in pig tissues using SYBR green qPCR. BMC Mol. Biol. 8, 67 https://doi.org/10.1186/1471-2199-8-67
- Oh, J.H., Kim, Y.S., and Kim, N.S. (2003). An improved method for constructing a full-length enriched cDNA library using small amounts of total RNA as a starting material. Exp. Mol. Med. 35, 586-590 https://doi.org/10.1038/emm.2003.77
- Oh, J.H., Sohn, H.Y., Kim, J.M., Kim, Y.S., and Kim, N.S. (2004). Construction of multi-purpose vectors, pCNS and pCNS-D2, are suitable for collection and functional study of large-scale cDNAs. Plasmid 51, 217-226 https://doi.org/10.1016/j.plasmid.2004.01.001
- Palmieri, F. (2004). The mitochondrial transporter family (SLC25): physiological and pathological implications. Pflugers Arch. 447, 689-709 https://doi.org/10.1007/s00424-003-1099-7
- Quackenbush, J., Liang, F., Holt, I., Pertea, G., and Upton, J. (2000). The TIGR gene indices: reconstruction and representation of expressed gene sequences. Nucleic Acids Res. 28, 141- 145 https://doi.org/10.1093/nar/28.1.141
- Soares, M.B., Bonaldo, M.F., Jelene, P., Su, L., Lawton, L., and Efstratiadis, A. (1994). Construction and characterization of a normalized cDNA library. Proc. Natl. Acad. Sci. USA 91, 9228- 9232 https://doi.org/10.1073/pnas.91.20.9228
- Stapleton, M., Carlson, J., Brokstein, P., Yu, C., Champe, M., George, R., Guarin, H., Kronmiller, B., Pacleb, J., Park, S., et al. (2002). A Drosophila full-length cDNA resource. Genome Biol. 3, RESEARCH0080
- Stekel, D.J., Git, Y., and Falciani, F. (2000). The comparison of gene expression from multiple cDNA libraries. Genome Res. 10, 2055-2061 https://doi.org/10.1101/gr.GR-1325RR
- Suryawan, A., Swanson, L.V., and Hu, C.Y. (1997). Insulin and hydrocortisone, but not triiodothyronine, are required for the differentiation of pig preadipocytes in primary culture. J. Anim. Sci. 75, 105-111 https://doi.org/10.2527/1997.751105x
- Suzuki, Y., and Sugano, S. (2001). Construction of full-lengthenriched cDNA libraries. The oligo-capping method. Methods Mol. Biol. 175, 143-153
- Tilley, S.L., Coffman, T.M., and Koller, B.H. (2001). Mixed messages: modulation of inflammation and immune responses by prostaglandins and thromboxanes. J. Clin. Invest. 108, 15-23 https://doi.org/10.1172/JCI200113416
- Trayhurn, P., and Wood, I.S. (2005). Signalling role of adipose tissue: adipokines and inflammation in obesity. Biochem. Soc. Trans. 33, 1078-1081 https://doi.org/10.1042/BST20051078
- Tuggle, C.K., and Schmitz, C.B. (1994). Cloning and characterization of pig muscle cDNAs by an expressed sequence tag approach. Anim. Biotechnol. 5, 1-13
- Tuggle, C.K., Green, J.A., Fitzsimmons, C., Woods, R., Prather, R.S., Malchenko, S., Soares, B.M., Kucaba, T., Crouch, K., Smith, C., et al. (2003). EST-based gene discovery in pig: virtual expression patterns and comparative mapping to human. Mamm. Genome 14, 565-579
- Uenishi, H., Eguchi, T., Suzuki, K., Sawazaki, T., Toki, D., Shinkai, H., Okumura, N., Hamasima, N., and Awata, T. (2004). PEDE (Pig EST Data Explorer): construction of a database for ESTs derived from porcine full-length cDNA libraries. Nucleic Acids Res. 32, D484-488 https://doi.org/10.1093/nar/gkh037
- Uenishi, H., Eguchi-Ogawa, T., Shinkai, H., Okumura, N., Suzuki, K., Toki, D., Hamasima, N., and Awata, T. (2007). PEDE (Pig EST Data Explorer) has been expanded into Pig Expression Data Explorer, including 10 147 porcine full-length cDNA sequences. Nucleic Acids Res. 35, D650-653 https://doi.org/10.1093/nar/gkl954
- van Wijk, H.J., Arts, D.J., Matthews, J.O., Webster, M., Ducro, B.J., and Knol, E.F. (2005). Genetic parameters for carcass composition and pork quality estimated in a commercial production chain. J. Anim. Sci. 83, 324-333 https://doi.org/10.2527/2005.832324x
- Wang, P., Mariman, E., Keijer, J., Bouwman, F., Noben, J.P., Robben, J., and Renes, J. (2004). Profiling of the secreted proteins during 3T3-L1 adipocyte differentiation leads to the identification of novel adipokines. Cell Mol. Life Sci. 61, 2405-2417
- Wernersson, R., Schierup, M.H., Jorgensen, F.G., Gorodkin, J., Panitz, F., Staerfeldt, H.H., Christensen, O.F., Mailund, T., Hornshoj, H., Klein, A., et al. (2005). Pigs in sequence space: a 0.66X coverage pig genome survey based on shotgun sequencing. BMC Genomics 6, 70 https://doi.org/10.1186/1471-2164-6-70
- Wintero, A.K., Fredholm, M., and Davies, W. (1996). Evaluation and characterization of a porcine small intestine cDNA library: analysis of 839 clones. Mamm. Genome 7, 509-517
- Zhong, S., Storch, K.F., Lipan, O., Kao, M.C., Weitz, C.J., and Wong, W.H. (2004). GoSurfer: a graphical interactive tool for comparative analysis of large gene sets in gene ontology space. Appl. Bioinformatics 3, 261-264 https://doi.org/10.2165/00822942-200403040-00009
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